Detailed information    

insolico Bioinformatically predicted

Overview

Name   radC   Type   Machinery gene
Locus tag   VP_RS00900 Genome accession   NC_004603
Coordinates   197245..197919 (+) Length   224 a.a.
NCBI ID   WP_005482037.1    Uniprot ID   Q87T86
Organism   Vibrio parahaemolyticus RIMD 2210633     
Function   homologous recombination (predicted from homology)   
Homologous recombination

Genomic Context

Location: 192245..202919
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VP_RS00880 (VP0179) - 192367..193317 (-) 951 WP_005458959.1 Kdo(2)-lipid IV(A) acyltransferase -
  VP_RS00885 (VP0180) slmA 193323..193913 (-) 591 WP_005478760.1 nucleoid occlusion factor SlmA -
  VP_RS00890 (VP0181) coaBC 194074..195273 (-) 1200 WP_005478613.1 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate--cysteine ligase CoaBC -
  VP_RS00895 (VP0183) - 195458..197131 (+) 1674 WP_005489697.1 methyl-accepting chemotaxis protein -
  VP_RS00900 (VP0184) radC 197245..197919 (+) 675 WP_005482037.1 DNA repair protein RadC Machinery gene
  VP_RS00905 (VP0185) rpmB 198223..198459 (+) 237 WP_005467944.1 50S ribosomal protein L28 -
  VP_RS00910 (VP0186) rpmG 198473..198643 (+) 171 WP_004410866.1 50S ribosomal protein L33 -
  VP_RS00915 (VP0187) - 198731..200263 (+) 1533 WP_005462493.1 phosphoethanolamine transferase -
  VP_RS00920 (VP0188) - 200333..200809 (+) 477 WP_005462494.1 hypothetical protein -
  VP_RS00925 (VP0189) mutM 200912..201721 (+) 810 WP_005462495.1 bifunctional DNA-formamidopyrimidine glycosylase/DNA-(apurinic or apyrimidinic site) lyase -
  VP_RS00930 (VP0190) coaD 201818..202300 (+) 483 WP_005462497.1 pantetheine-phosphate adenylyltransferase -

Sequence

Protein


Download         Length: 224 a.a.        Molecular weight: 25334.11 Da        Isoelectric Point: 6.6112

>NTDB_id=23355 VP_RS00900 WP_005482037.1 197245..197919(+) (radC) [Vibrio parahaemolyticus RIMD 2210633]
MILKALPNESMPREKLLQRGPQALTDAELLAIFLRTGTQGMNVIELADFLIQDFGSLRQLFSASEQEFCQHKGLGQAKYV
QLQAVLEMTQRYLAETLKRGDALTSPEQTKLYLSSILRDRQREAFYILFLDNQHRVIKDEILFEGTLDAASVYPREVVKR
ALHHNAAALILAHNHPSGVAEPSQADRRITRRLIDALALVDIRILDHFVIGDGESVSFAERGWI

Nucleotide


Download         Length: 675 bp        

>NTDB_id=23355 VP_RS00900 WP_005482037.1 197245..197919(+) (radC) [Vibrio parahaemolyticus RIMD 2210633]
ATGATACTCAAAGCTTTGCCAAATGAGTCGATGCCACGAGAGAAACTTCTGCAACGTGGGCCGCAGGCGTTAACCGATGC
CGAATTACTGGCGATATTCCTCCGTACGGGCACGCAAGGCATGAACGTGATTGAGTTGGCCGATTTCCTTATTCAAGATT
TTGGTTCGCTTAGGCAGCTGTTCTCTGCTTCAGAACAAGAGTTTTGTCAGCATAAAGGGTTAGGGCAGGCCAAATATGTG
CAATTGCAAGCGGTGTTAGAAATGACTCAGCGATATTTGGCGGAAACCCTCAAGCGTGGCGACGCCTTAACCAGCCCTGA
GCAAACTAAATTGTATCTCTCCTCTATATTAAGAGACCGCCAAAGAGAGGCTTTTTACATTCTTTTCCTCGATAACCAAC
ACCGAGTAATAAAAGATGAGATTTTATTCGAAGGAACCTTGGATGCTGCATCAGTTTACCCTAGAGAAGTAGTAAAAAGA
GCCCTGCACCACAACGCGGCTGCTTTGATTTTGGCGCATAACCACCCGTCCGGTGTCGCCGAGCCAAGCCAGGCAGACCG
CAGGATTACAAGGCGATTAATTGATGCGTTGGCGCTGGTGGATATTCGTATTTTGGACCATTTCGTTATTGGCGATGGGG
AAAGTGTCTCTTTTGCTGAAAGAGGATGGATATAA

Domains

Predicted by InterProScan.

UPF0758 N-terminal (UPF0758_N)

(4-80)

RadC-like JAB domain (RadC)

(104-222)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB Q87T86

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  radC Haemophilus influenzae Rd KW20

51.613

96.875

0.5
  ysxA/radC Bacillus subtilis subsp. subtilis str. 168

38.739

99.107

0.384

Multiple sequence alignment